[Chimera-users] differentiating lower and upper case chain ID's

Elaine Meng meng at cgl.ucsf.edu
Wed Sep 28 14:12:20 PDT 2016


Hi Melissa,
After you use split, there is no a longer a model with both upper- and lower-case chain IDs (since each model is now only one chain) and so the case is ignored.  After splitting you would have to specify by model number instead, e.g. #0.25.  It is only in models with both upper- and lower-case chain IDs that the case you type matters.
Elaine

> On Sep 28, 2016, at 9:53 AM, Melissa Jurica <mjurica at ucsc.edu> wrote:
> 
> Hmm.  If I have a command file with the following, both chains end up being called smb1_b.  Am I missing something?  Prior to running this I used the “split” command to separate the chains into sub-models.
> 
> setattr m name  Brr2_B #0:.B
> setattr m name  smb1_b #0:.b
> 
> Melissa
> 
> On Sep 28, 2016, at 9:43 AM, Elaine Meng <meng at cgl.ucsf.edu> wrote:
> 
>> Hi Melissa,
>> This is already done.  Although chain-ID capitalization is ignored when the file has only capitalized IDs, when both are present, the upper- or lower-case that you type is honored.  I tested by opening 5GM6, and making sure that the following give different results:
>> 
>> sel :.a
>> sel :.A
>> 
>> Best,
>> Elaine
>> ----------
>> Elaine C. Meng, Ph.D. 
>> UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
>> Department of Pharmaceutical Chemistry
>> University of California, San Francisco
>> 
>>> On Sep 27, 2016, at 4:24 PM, Melissa Jurica <mjurica at ucsc.edu> wrote:
>>> 
>>> Hi-
>>> Is it possible to differentiate between chain ID’s that are in upper vs. lower case (i.e. A vs. a) in the command line?  Spliceosome complexes have too many chains (ex. 5GM6).
>>> Thanks,
>>> Melissa
>> 




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